Run ID: SRR6045376
Sample name:
Date: 04-04-2023 11:58:08
Number of reads: 1541986
Percentage reads mapped: 93.17
Strain: lineage4.1.2.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 0.99 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.42 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 1.0 | ethambutol |
embB | 4248025 | p.Glu504Asp | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490751 | c.-32T>G | upstream_gene_variant | 0.22 |
fgd1 | 491027 | p.Asn82Thr | missense_variant | 0.26 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
fgd1 | 491669 | p.Lys296Arg | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
ccsA | 619831 | c.-60T>G | upstream_gene_variant | 0.31 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.98 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472326 | n.481T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472692 | n.847T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474151 | n.494C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474155 | n.498G>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474164 | n.507C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474171 | n.514C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474181 | n.524C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474184 | n.527C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474185 | n.528G>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474197 | n.540C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474199 | n.542G>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474202 | n.545T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474218 | n.561T>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474228 | n.571T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474252 | n.595T>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474275 | n.618T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474348 | n.691C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474351 | n.694G>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474362 | n.705A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474709 | n.1052G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474734 | n.1077G>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474749 | n.1092C>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1474753 | n.1097delC | non_coding_transcript_exon_variant | 0.75 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.75 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474780 | n.1123C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474801 | n.1144G>A | non_coding_transcript_exon_variant | 0.6 |
rrl | 1474802 | n.1145T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475715 | n.2058G>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475751 | n.2094C>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475756 | n.2099T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475757 | n.2101_2102dupAC | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475762 | n.2105G>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475764 | n.2107A>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1475765 | n.2108A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475767 | n.2112_2113dupTG | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475777 | n.2120A>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476227 | n.2570C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476411 | n.2754G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.18 |
fabG1 | 1674076 | p.Thr213Pro | missense_variant | 0.23 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.22 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878531 | c.-24A>G | upstream_gene_variant | 0.4 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embA | 4244905 | p.Val558Gly | missense_variant | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.99 |